Itinerary for Second Trip in January

My partner and I are travelling to Japan in February for three weeks after a successful trip in Jan 2024 (old itinerary here for anyone interested https://www.reddit.com/r/JapanTravel/comments/18uii03/final_itinerary_leaving_next_week/).

The in-city plans are relatively vague as we are prioritising covering things we didn’t have time for in our previous trip (art museums in Ueno for example, more shopping and time for eating). It's a lot more relaxed as we were pushing 60k steps a day on our last trip

We are in the process of booking hotels and the like for our new trip, and I'm looking for a bit of transport advice in getting from area to area as we slightly branch off from City-to-City travel. We are still planning day trips that will have us circle back to our "main city", but the base plan currently looks like this;

Day 1: Arrival in Tokyo – Feb 11th

Limousine bus to Shinjuku, relax, shop and eat

Day 2: Tokyo

Ueno Park, Art Museums, Asakusua

Day 3: Tokyo

Tsukiji Outer Market, Ginza, Itoya

Day 4: Tokyo – Yokohama Day Trip

Chinatown, Ramen Museum, Explore

Day 5: Tokyo

Shibuya, Yoyogi Park, Meiji Jingu

Day 6: Nagoya

Museums, Explore

Day 7: Nagoya

Possible Ghibli Park, Open to Suggestions or Travel to Takayama

Day 8: Takayama

Karakuri Museum, Matsuri no Mori museum, park walks depending on weather

Day 9: Kyoto

Bus to Nagoya, then Shinkansen to Kyoto on the same day. Imperial Palace walk, Rest/Explore

Day 10: Kyoto

Nishiki Market early, Fushimi Inari

Day 11: Kyoto

Sannenzaka/Ninenzaka, Kiyomizu-dera Temple

Day 12: Kyoto

Kawaramachi Shopping/Specialty Coffee search (Weekenders?)

Day 13: Osaka

Shinsaibashi/Dotonbori

Day 14: Osaka

Shitennoji, Boulangerie Parigot, walk to DenDen Town

Day 15: Osaka

Half day to Nara, Todaiji, Fox Purse Udon

Nightlife Dotonbori

Day 16: Osaka

Himeji Castle, time for Kobe on the return trip?

Day 17: Tokyo

Shinkansen to Tokyo,Shinjuku, Kabukicho Tower 

Day 18: Kawaguchiko

Early bus to Fuji-Q, Ryokan/Fancy Hotel

Day 19: Tokyo

Explore Kawaguchiko, bus to Tokyo. Relax

Day 20: Tokyo

Shimokitazawa/ Nakano Broadway, Packing

Day 21: Departure from Tokyo 3rd March

Limousine Bus to Haneda

Obviously the Nozomi line will take us through the main cities the fastest, with a local train for Kyoto -> Osaka, but I have concerns about how we will get to Takayama if anyone has any advice. 

This itinerary was originally for November, but fell apart due to work obligations so we had more day trips to areas like Nikko that are great for autumn, any other suggestions are very welcome

by MickNeedsToRant